Bio
I am a Ph.D. candidate in Alejandra Medina-Rivera’s lab, the Regulatory Genomics and Bioinformatics Laboratory at International Laboratory for Human Genome Research (LIIGH) from the National Autonomous University of Mexico (UNAM). Our goal is to integrate public microarray and RNA-seq data, together with samples manually curated of lung diseases, such as Chronic Obstructive Pulmonary Disease (COPD) and Idiopatic Pulmonary Fibrosis (IPF) for better characterization of gene expression signatures. We work in close colaboration with Julio Collado-Vides, Moises Selman and Yalbi I. Balderas-MartÃnez.
Education
Ph.D. candidate in Biomedical Sciences, current | National University of Mexico (UNAM)
Master of Science in cell biology, 2016 | Centro de Investigaciones y Estudios Avanzados del IPN (CINVESTAV)
Bachelor in Biochemical Engineering, 2012 | National Biological Science School (ENCB), IPN
Projects
We created PulmonDB, a gene expression lung diseases database, created with public transcriptomic high-throuput data and manual curation information with an online interface for a quick accessibility.
- Gene expression profile in COPD patients
Using PulmonDB we are analysing gene expression profiles in COPD patients to understand better the disease.
Past Projects
My project aim was to unscramble the alternative splicing effects of TCDD in C57BL6 mouse hepatocytes using high-throughput data.
- IGFBP2 in hepatocarcinogenesis. | Saúl Villa-Treviño’s lab
I characterized the protein expression of Insulin-Like Growth Factor Binding Protein II (IGFBP2) during the develompent of cancer in rat livers using blood and tissue.
Internships
- Dana-Farber Cancer Institute | Department of Data Sciences, Rafael A Irizarry Laboratory | Nov 2019 – Jan 2020 | Boston, USA
PulmonDB data analysis.
- Fundazione Edmund Mach | Department of Bioinformatics, Marco Moretto | Sep 2017 – Dic 2017 | Trento, Italy
Set non-public resource to build compendia in Mexico.
- Ontario Institute for Cancer Research | Paul C. Boutros’ Laboratory | Sep 2014 – May 2016 | Toronto, Canada
Explored exon microarrays of mouse liver to characterize alternative splicing events under TCDD exposure.
- Vancouver Prostate Center | Michael Cox’s Laboratory | Jun 2010 – Ago 2010 | Vancouver, Canada
Analyzed cell growth, viability, and metastasis by transfectin postate cell lines to uncover potential prostate cancer driver genes.
Seminars, conferences and workshops
WGCAC Next Generation Sequencing Bioinformatics Chile 2019 Workshop attendee | 2019 | Santiago, Chile
Statistical and Computational Challenges in High-Throughput Genomics with Application to Precision Medicine Talk | 2018 | Oaxaca, Mexico
American Thoracic Society 2018, International Conference Poster | 2018 | San Diego, CA
International Workshops on Bioinformatics-PYTHON Workshop attendee | 2017 | CCG, UNAM
Teaching
Ecology/R Workshop in DataCarpentry | Instructor 2018 | Universidad de Puerto Rico | 2017 | Puerto Rico, San Juan
International Workshops on Bioinformatics-GALAXY Teacher Assistant | Universidad Nacional Autonoma de México | 2017 | México, CCG
Honors and awards
Ph.D. Scholarship | Consejo Nacional de Ciencia y TecnologÃa (CONACYT, Mexico). | 2017 - current
Graduate Student Mobility Scholarship (BECA MIXTA) | Consejo Nacional de Ciencia y TecnologÃa (CONACYT, Mexico). | 2017
Master’s Scholarship | Consejo Nacional de Ciencia y TecnologÃa (CONACYT, Mexico).| 2013 - 2015
Graduate Student Mobility Scholarship (BECA MIXTA) | Consejo Nacional de Ciencia y TecnologÃa (CONACYT, Mexico).| 2014-2015
Summer Scholarship | CINVESTAV | 2013
Undergraduate Student Mobility Award | CINVESTAV | 2011
Undergraduate Scholarship | IPN | 2007-2011
Publications
| Authors | Title | Year | Journal |
|---|---|---|---|
| AB Villaseñor-Altamirano, M Moretto, M Maldonado, A Zayas-Del Moral, … | PulmonDB: A curated lung disease gene expression database | 2020 | Scientific reports |
| M Bravo-Lopez, V Villa-Islas, C Rocha Arriaga, AB Villaseñor-Altamirano, … | Paleogenomic insights into the red complex bacteria tannerella forsythia in pre-hispanic and colonial individuals from mexico | 2020 | Philosophical Transactions of the Royal Society B |
| M Moretto, P Sonego, AB Villaseñor-Altamirano, K Engelen | First step toward gene expression data integration: Transcriptomic data acquisition with COMMAND> | 2019 | BMC bioinformatics |
| AB Villaseñor-Altamirano, JD Watson, SD Prokopec, CQ Yao, PC Boutros, … | 2,3,7,8-tetrachlorodibenzo-p-dioxin modifies alternative splicing in mouse liver | 2019 | PloS one |